Table 1.
Results of the late cycle intergenic microarray experiment showing all known ncRNAs [tRNA, tmRNA, 4.5SRNA, 5SRNA, M1RNA, ihtA(15) and pCHL1 plasmid anti-sense transcripts(21,28)] in addition to potential ncRNAs (NA, not attempted)
| Name | Approximate size | Classa | A.F.U. | Northern |
Deep sequencing (21) |
|
|---|---|---|---|---|---|---|
| Seq | Northern | |||||
| 37 tRNAs | 75–100 | tRNA | 25 927 | NA | √ | NA |
| tmRNA | 525 | PI | 24 598 | NA | √ | Positive |
| 4.5S RNA | 100 | PI | 15 917 | Positive | √ | Positive |
| 5S rRNA | 125 | Ribosomal | 32 001 | NA | √ | NA |
| M1 RNA | 400 | PI | 20 235 | Positive | √ | NA |
| ihtA | 150 | trans/3′-UTR | 9938 | Positive | √ | Positive |
| pCHL1 | 500/220 | Cis | NA | Positive | √ | Positive |
| CTIG153 | 150/100 | Cis | 884 | Positive | √ | Positive |
| CTIG241 | 75 | Trans | 6073 | Positive | √ | Positive |
| CTIG270 | 100 | Cis | 994 | Positive | √ | NA |
| CTIG327 | 250 | Trans | 1926 | Positive | − | NA |
| CTIG356 | 225 | trans/UTR | 7238 | Positive | √ | Positive |
| CTIG360 | 200 | trans/Riboswitch | 4533 | Positive | − | NA |
| CTIG498 | 100 | trans/3′-UTR | 3976 | Positive | − | NA |
| CTIG504 | 75 | trans/3′-UTR | 3959 | Positive | − | NA |
| CTIG582 | 200 | Trans | 2135 | Positive | − | NA |
| CTIG643 | 650 | Trans | 7279 | Positive | √ | NA |
| CTIG684 | 100 | Trans | 1420 | Positive | √ | Negative |
| CTIG805 | 200 | Trans | 5677 | Positive | √ | Negative |
| CTIG809 | 125 | Trans | 748 | Positive | − | NA |
| CTIG857 | 225 | Trans | 772 | Positive | − | NA |
| CTIG001 | 125 | Trans | 1396 | Negative | − | NA |
| CTIG059 | 50 | Trans | 1281 | Negative | − | NA |
| CTIG072 | 175 | Trans | 2780 | Negative | − | NA |
| CTIG181 | 75 | Trans | 4001 | Negative | − | NA |
| CTIG195 | 200 | Trans | 1852 | Negative | − | NA |
| CTIG237 | 325 | Trans | 6378 | Negative | − | NA |
| CTIG256 | 150 | Trans | 1941 | Negative | − | NA |
| CTIG268 | 175 | trans/5′-UTR | 5765 | Negative | − | NA |
| CTIG323 | 225 | Trans | 4479 | Negative | √ | NA |
| CTIG433 | 75 | Trans/5′-UTR | 2723 | Negative | − | NA |
| CTIG442 | 200 | Trans/3′UTR | 2339 | Negative | − | NA |
| CTIG444 | 125 | Cis | 3620 | Negative | − | NA |
| CTIG449 | 125 | Trans | 4248 | Negative | √ | NA |
| CTIG592 | 150 | Trans | 1335 | Negative | − | NA |
| CTIG660 | 125 | trans/3′-UTR | 14 347 | Negative | − | NA |
| CTIG663 | 250 | Trans | 2784 | Negative | − | NA |
| CTIG775 | 175 | Trans | 2877 | Negative | − | NA |
| CTIG813 | 225 | Trans | 1364 | Negative | − | NA |
| CTIG864 | 125 | Trans | 19 393 | Negative | − | NA |
Approximate sizes are based on the array (except for plasmid anti-sense transcript), the potential functional class, the average fluorescence of the probes representing the ncRNA.
aClass of ncRNA refers to its presumed mode of action. PI is protein interaction.
A.F.U., average fluorescence units.